Annotation consistency: 'Response to' terms

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Group Members

(anyone can add themselves)

  • Tanya Berardini, Emily Dimmer, Pascale Gaudet, Ruth Lovering

1. Issue

Is there inconsistency in the annotation of proteins to these terms? If there is, is this related to whether the annotation is to multicellular organism or singled cell organism?

When a protein is up-regulated following a stimulation should it be annotated to 'response to this stimulus'?

How far down a series of events do we annotate a protein to the process?

For example GO:0032868 response to insulin stimulus Definition: A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an insulin stimulus.

If we look at wikipedia's comments on the effects of insulin: http://en.wikipedia.org/wiki/Insulin then we would expect that insulin stimulation will cause changes to a wide variety of metabolic pathways and transport systems and increases in cell division associated pathways (replication, protein synthesis, cell cycle etc) etc.

Should cell cycle genes up-regulated by insulin be included in response to insulin stimulus?

Possibly the definition is so broad that all up-regulated genes could be included. But is this the intention of GO?

I would have thought that the proteins associated with the 'response to insulin stimulus' would be: receptors detecting the stimulus, transducers ensuring that the response to insulin is initiated by the cell and that proteins involved in the change of the cell itself would not be included, ie not including proteins involved in the storage of glucose in liver (and muscle) cells in the form of glycogen.

Should insulin be associated with GO:0032868 response to insulin stimulus?

2. Proposed solution(s)

Ask GO editors to comment on intention of 'response to' GO terms Consider identifying start and finish of the 'response to' process.

3. Comments/counter arguments

4. Proposed resolution

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